Evaluating the utility of microsatellites for investigations of autopolyploid taxa

Journal of Heredity

Volumn 102, Issue 4, 2011, Pages 473-478

  Trapnell, Dorset W ^a   Hamrick, J L ^a   Parker, Kathleen C ^a   Braungart, Kathryn W ^a   Glenn, Travis C ^a  

^a UNIVERSITY OF GEORGIA   (United States)

Author keywords

allozymes; clones; simple sequence repeats; SSRs; tetrasomic inheritance

Indexed keywords

ALLOENZYME; MICROSATELLITE DNA;

ALLELE; ARTICLE; AUTOPOLYPLOIDY; GENE LOCUS; GENOTYPE; MATHEMATICAL MODEL; PHENOTYPE; PRIORITY JOURNAL; SIMPLE SEQUENCE REPEAT;

GENE DOSAGE; GENE FREQUENCY; GENETICS, POPULATION; GENOTYPE; ISOENZYMES; MICROSATELLITE REPEATS; MODELS, GENETIC; POLYPLOIDY;

EID: 79959517163     PISSN: 00221503     EISSN: 14657333     Source Type: Journal    
DOI: 10.1093/jhered/esr045     Document Type: Article

References (47)

1. Bayer RJ, Crawford DJ. 1986. Allozyme divergence among five diploid species of Antennaria (Asteraceae: Inuleae) and their allopolyploid derivatives. Am J Bot. 73:287-296.
2. Bowers JE, Chapman BA, Rong JK, Paterson AH. 2003. Unravelling angiosperm genome evolution by phylogenetic analysis of chromosomal duplication events. Nature. 422:433-438. (Pubitemid 36411396)
3. Brochmann C, Soltis PS, Soltis DE. 1992. Recurrent formation and polyphyly of Nordic polyploids in Draba (Brassicaceae). Am J Bot. 79: 673-688.
4. Cortes MC, Hunziker JH. 1997. Isozymes in Larrea divaricata and Larrea tridentata (Zygophyllaceae): a study of two amphitropical vicariants and autopolyploidy. Genetica. 101:115-124. (Pubitemid 28091155)
5. Cui L, Wall PK, Leebens-Mack JH, Lindsay BG, Soltis DE, Doyle JJ, Soltis PS, Carlson JE, Arumuganathan K, Barakat A, et al. 2006. Widespread genome duplications throughout the history of flowering plants. Genome Res. 16:738-749. (Pubitemid 43830694)
6. De Silva HN, Hall AJ, Rikkerink E, McNeilage MA, Fraser LG. 2005. Estimation of allele frequencies in polyploids under certain patterns of inheritance. Heredity. 95:327-334. (Pubitemid 41372111)
7. Esselink GD, Nybom H, Vosman B. 2004. Assignment of allelic configuration in polyploids using the MAC-PR (microsatellite DNA allele counting-peak ratios) method. Theor Appl Genet. 109: 402-408. (Pubitemid 39059553)
8. Goldblatt P. 1980. Polyploidy in angiosperms: monocotyledons. In: Lewis WH, editor. Polyploidy: biological relevance. New York: Plenum Press. p. 219-240.
9. Grant V. 1963. The origin of adaptations. New York: Columbia University Press.
10. Grant V. 1981. Plant speciation. New York: Columbia University Press.
11. Haldane JBS. 1930. Theoretical genetics of autopolyploids. J Genet. 22: 359-372.
12. Haldane JBS. 1948. The number of genotypes which can be formed with a given number of genes. J Genet. 49:117-119.
13. Hamrick JL, Godt MJW. 1989. Allozyme diversity in plant species. In: Brown AHD, Clegg MT, Kahler AL, Weir BS, editors. Plant population genetics, breeding and genetic resources. Sunderland (MA): Sinauer Associates, Inc. p. 46-63.
14. Krebs SL, Hancock JF. 1989. Tetrasomic inheritance of isoenzyme markers in the highbush blueberry, Vaccinium corymbosum L.. Heredity. 63:11-18.
15. Laushman RH, Schnabel A, Hamrick JL. 1996. Electrophoretic evidence for tetrasomic inheritance in the dioecious tree, Maclura pomifera (Raf) Schneid. J Hered. 87:469-473. (Pubitemid 27009523)
16. Lian C, Oishi R, Miyashita N, Nara K, Nakaya H, Wu B, Zhou Z, Hogetsu T. 2003. Genetic structure and reproduction dynamics of Salix reinii during primary succession on Mount Fuji, as revealed by nuclear and chloroplast microsatellite analysis. Mol Ecol. 12:609-618. (Pubitemid 36380420)
17. Liao WJ, Zhu BR, Zeng YF, Zhang DY. 2008. Tetra: an improved program for population genetic analysis of allotetraploid microsatellite data. Mol Ecol Resour. 8:1260-1262.
18. Lumaret R. 1986. Doubled duplication of the structural gene for cytosolic phosphoglucose isomerase in the Dactylis glomerata L. polyploid complex. Mol Biol Evol. 3:499-521. (Pubitemid 17210666)
19. Markwith SH, Stewart DJ, Dyer JL. 2006. Tetrasat: a program for the population analysis of allotetraploid microsatellite data. Mol Ecol Notes. 6:586-589. (Pubitemid 44252547)
20. Martinez-Zapater JM, Oliver JL. 1984. Genetic analysis of isozyme loci in tetraploid potatoes (Solanum tuberosum L.). Genetics. 108:669-679.
21. Masterson J. 1994. Stomatal size in fossil plants: evidence for polyploidy in majority of angiosperms. Science. 264:421-423.
22. Mengoni A, Gori A, Bazzicalupo M. 2000. Use of RAPD and microsatellite (SSR) variation to assess genetic relationships among populations of tetraploid alfalfa, Medicago sativa. Plant Breeding. 119:311-317. (Pubitemid 30613419)
23. Muller HJ. 1914. A new mode of segregation in Gregorys tetraploid Primulas. Am Nat. 48:508-512.
24. Murawski DA, Fleming TH, Ritland K, Hamrick JL. 1994. The mating system of an autotetraploid cactus, Pachycereus pringlei. Heredity. 72: 86-94. (Pubitemid 2034361)
25. Nassar JM, Hamrick JL, Fleming TH. 2003. Population genetic structure of Venezuelan chiropterophilous columnar cacti (Cactaceae). Am J Bot. 90: 1628-1637. (Pubitemid 37446908)
26. Nybom H. 2004. Comparison of different nuclear DNA markers for estimating intraspecific genetic diversity in plants. Mol Ecol. 13:1143-1155. (Pubitemid 38504420)
27. Obbard DJ, Harris SA, Pannell JR. 2006. Simple allelic phenotype diversity and differentiation statistics for allopolyploids. Heredity. 97: 296-303. (Pubitemid 44454246)
28. Otto SP, Whitton J. 2000. Polyploid incidence and evolution. Annu Rev Genet. 34:401-437. (Pubitemid 32065927)
29. Parker KC, Trapnell DW, Hamrick JL, Hodgson WC, Parker AJ. 2010. Inferring ancient Agave cultivation practices from contemporary genetic patterns. Mol Ecol. 19:1622-1637.
30. Quiros CF. 1982. Tetrasomic segregation for multiple alleles in alfalfa. Genetics. 101:117-127.
31. Ramsey J, Schemske DW. 2002. Neopolyploidy in flowering plants. Annu Rev Ecol Syst. 33:589-639. (Pubitemid 36035152)
32. Samuel R, Pinsker W, Ehrendorfer F. 1990. Allozyme polymorphism in diploid and polyploid populations of Galium. Heredity. 65:369-378.
33. Soltis DE, Rieseberg LH. 1986. Autopolyploidy in Tolmiea menziesii (Saxifragaceae): genetic insights from enzyme electrophoresis. Am J Bot. 73:310-318.
34. Soltis DE, Soltis PS. 1993. Molecular data and the dynamic nature of polyploidy. Crit Rev Plant Sci. 12:243-273.
35. Soltis PS, Soltis DE. 2000. The role of genetic and genomic attributes in the success of polyploids. Proc Natl Acad Sci U S A. 97: 7051-7057. (Pubitemid 30431415)
36. Soltis DE, Soltis PS, Tate JA. 2004. Advances in the study of polyploidy since plant speciation. New Phytol. 161:173-191. (Pubitemid 38047058)
37. Stebbins GL. 1947. Types of polyploids: their classification and significance. Adv Genet. 1:403-429.
38. Stebbins GL. 1971. Chromosomal evolution in higher plants. London: Addison-Wesley.
39. Stift M, Berenos C, Kuperus P, van Tienderen PH. 2008. Segregation models for disomic, tetrasomic and intermediate inheritance in tetraploids: a general procedure applied to Rorippa (Yellow Cress) microsatellite data. Genetics. 179:2113-2123.
40. Sybenga J. 1969. Allopolyploidization of autopolyploids. I. Possibilities and limitations. Euphytica. 18:355-371.
41. Tanksley SD, Orton TJ, editors. 1983. Isozymes in plant genetics and breeding. Amsterdam: Elsevier Part 1, p. 516 and Part 2, p. 472
42. Trapnell DW, Hamrick JL, Giannasi DE. 2004. Genetic variation and species boundaries in Calopogon (Orchidaceae). Syst Bot. 29:308-315. (Pubitemid 38681980)
43. Van Puyvelde K, Van Geert A, Triest L. 2010. ATETRA, a new software program to analyze tetraploid microsatellite data: comparison with TETRA and TETRASAT. Mol Ecol Resour. 10:331-334.
44. Weeden NF, Wendel JF. 1989. Genetics of plant isozymes. In: Soltis DE, Soltis PS, editors. Isozymes in plant biology. Portland (OR): Dioscorides Press. p. 46-72.
45. Wolfe KH. 2001. Yesterdays polyploids and the mystery of diploidization. Nat Rev Genet. 2:333-341.
46. Wolfe KH, Shields DC. 1997. Molecular evidence for an ancient duplication of the entire yeast genome. Nature. 387:708-713. (Pubitemid 27270611)
47. Wood TE, Takebayashi N, Barker MS, Mayrose I, Greenspoon PB, Rieseberg LH. 2009. The frequency of polyploid speciation in vascular plants. Proc Natl Acad Sci U S A. 106:13875-13879.